Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Probable cytochrome P450 313a1.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g11037 g11037.t3 isoform g11037.t3 13619791 13620802
chr_1 g11037 g11037.t3 exon g11037.t3.exon1 13619791 13620802
chr_1 g11037 g11037.t3 TTS g11037.t3 13619813 13619813
chr_1 g11037 g11037.t3 cds g11037.t3.CDS1 13619881 13620738
chr_1 g11037 g11037.t3 TSS g11037.t3 NA NA

Sequences

>g11037.t3 Gene=g11037 Length=1012
GCTTATAAAAATAATTTCGCTTAGATGTCATGAGCCGGTTTTATACTTTGAGCCAATATA
TCGCATGACACGAAATTACTACAGAGAGAAAAAATACCGCAAACGTACTACATACTATCT
CGACCAAGTGCTCAAAGAACGTCGCGAGTTAATTTCACCAAATAATAATCTTACAACTGC
TTCATCAGTCGCTACAATGAGAACAGATATCACAAAAGATGAAGAGATGGGAATAACAGT
GCAAGAAATACCAAATATATCGCTCAACAGTCACAGCTTTATTGACCACATGGTGATGCA
GAGCGGAGCATTTAATGATGAAGAAATTCACGATCACATCTACACTTTCGTTGCTGCCGG
TTATGAAACTGTTGCATTGCAGACATTTTTCACACTGTTGCTGCTTGCTATACACACTGA
CATGCAAGAGCGAGTTCACTGTGAAGTAGTTAATGTTGGTGACATTAATTGTGAGTCACT
CGACAAGCTCAATTACCTTGACCGAGTCATTAAAGAGTCTATGCGACTACTACCGAGTGT
GCCAATTGTGGGGCGTGAAACTCGCGAGGAAGTCGTGATTGGTGATAAGAAAATTCCAAA
AGGCATCACTTTGCTTATTCATTTATTTAATTTGCATCGAAGGAAGGATATATGGGGCGA
TGATGCACATGAGTTTAATCCAGATAGATTTCTACCTGAAAATGTTGCTCAAAGACATTC
ACACAGCTTCTTGCCTTTTTCTGAAGGTTTAAGGGATTGTATTGGGAAAGTTTATGCTAT
GTATGCAATTAAAACTATGCTAGTGACAATTTTGAGAAAATTTAAAGTCTCAACAGATTT
AAAATTTGGAGAACTTAGTTATAAGGCTGATATTACACTAAAAATATGTCAGAATACAAA
GATAAAAATTGAAAAAAGATAAAATGTGATTGGTTCTAAAAATTATTATTAAAAATATTA
TTTAACAAAATAAATTTTGCCAGTGTTTTGAAAAAAAAAATGGTTTTAAATA

>g11037.t3 Gene=g11037 Length=285
MTRNYYREKKYRKRTTYYLDQVLKERRELISPNNNLTTASSVATMRTDITKDEEMGITVQ
EIPNISLNSHSFIDHMVMQSGAFNDEEIHDHIYTFVAAGYETVALQTFFTLLLLAIHTDM
QERVHCEVVNVGDINCESLDKLNYLDRVIKESMRLLPSVPIVGRETREEVVIGDKKIPKG
ITLLIHLFNLHRRKDIWGDDAHEFNPDRFLPENVAQRHSHSFLPFSEGLRDCIGKVYAMY
AIKTMLVTILRKFKVSTDLKFGELSYKADITLKICQNTKIKIEKR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g11037.t3 Gene3D G3DSA:1.10.630.10 Cytochrome p450 5 285 3.9E-64
2 g11037.t3 PANTHER PTHR24291:SF140 CYTOCHROME P450 4C3-RELATED 24 285 1.9E-62
3 g11037.t3 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 24 285 1.9E-62
7 g11037.t3 PRINTS PR00385 P450 superfamily signature 98 115 2.2E-8
10 g11037.t3 PRINTS PR00465 E-class P450 group IV signature 142 158 5.6E-12
6 g11037.t3 PRINTS PR00385 P450 superfamily signature 147 158 2.2E-8
9 g11037.t3 PRINTS PR00465 E-class P450 group IV signature 192 210 5.6E-12
11 g11037.t3 PRINTS PR00465 E-class P450 group IV signature 216 232 5.6E-12
4 g11037.t3 PRINTS PR00385 P450 superfamily signature 223 232 2.2E-8
5 g11037.t3 PRINTS PR00385 P450 superfamily signature 232 243 2.2E-8
8 g11037.t3 PRINTS PR00465 E-class P450 group IV signature 232 250 5.6E-12
1 g11037.t3 Pfam PF00067 Cytochrome P450 9 257 3.2E-53
13 g11037.t3 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 225 234 -
12 g11037.t3 SUPERFAMILY SSF48264 Cytochrome P450 4 285 6.29E-63

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0020037 heme binding MF
GO:0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen MF
GO:0005506 iron ion binding MF
GO:0004497 monooxygenase activity MF
GO:0055114 NA NA

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed